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United States Department of Agriculture

Agricultural Research Service

Research Project: Characterization, Etiology, and Disease Management for Vegetable Crops

Location: Vegetable Research

Title: Global virus survey in tomato using small RNA deep sequencing technology

Authors
item Ling, Kai-Shu
item Li, Rugang
item Fei, Zhangjun -

Submitted to: Meeting Abstract
Publication Type: Abstract Only
Publication Acceptance Date: July 1, 2013
Publication Date: August 25, 2013
Citation: Ling, K., Li, R., Fei, Z. 2013. Global virus survey in tomato using small RNA deep sequencing technology. Acta phytopathologica sinica 43 (suppl.). 281-282.

Technical Abstract: Tomato is one of the most important and widely grown vegetable crops in the world, growing in more than 173 countries under various eco-systems. Viral diseases are one of the major limiting factors in tomato production, with up to 136 described viral species. Emerging viral diseases are especially difficult to control as no prior knowledge on the causal virus or no proper detection method available. Effective disease management is dependent on an accurate identification of the causal agent(s) for a disease. In recent years, next generation sequencing technologies, including deep sequencing of small RNA (sRNA) and assembly, have been developed for plant virus identification. Small RNAs (including miRNA and siRNA) are produced abundantly in plants and animals in regulating gene expression or in defense against virus or viroid infection. Analysis of a sRNA profile upon virus infection in plant may allow for a de novo assembly of known or unknown virus genomes. In collaboration with several vegetable seed companies, we are conducting a global survey for viruses and viroids across major tomato producing regions in the world and using deep sequencing of sRNA to generate a comprehensive tomato virus inventory and a global virus distribution map. The ultimate goal for this global survey is to develop molecular detection methods for the identified tomato viruses and viroids. Public availability of such tools and information will help to understand global virus distribution, to guide phytosanitory requirements, to predict risk of future epidemics, and to devise regional disease management strategies.

Last Modified: 10/21/2014
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